Dataset and Motifs High-scoring Sequences Motif Diagrams Annotated Sequences Debugging Information


MAST - Motif Alignment and Search Tool

MAST version 3.0 (Release date: 2001/03/01 11:41:04)

For further information on how to interpret these results or to get a copy of the MAST software please access http://meme.sdsc.edu.


REFERENCE

If you use this program in your research, please cite:

Timothy L. Bailey and Michael Gribskov, "Combining evidence using p-values: application to sequence homology searches", Bioinformatics, 14(48-54), 1998.


DATABASE AND MOTIFS

	DATABASE crp0.s (nucleotide)
	Last updated on Thu Mar  1 08:28:36 2001
	Database contains 18 sequences, 1890 residues

	Scores for positive and reverse complement strands are combined.

	MOTIFS meme.crp0.oops.4.sunsparcsolaris.html (nucleotide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    15   GTGACCCGGTTCACA
	  2    11   CGCATAACAAA
	  3    11   GTGATGGAAGG

	PAIRWISE MOTIF CORRELATIONS:
	MOTIF     1     2
	----- ----- -----
	   2   0.37
	   3   0.42  0.22
	No overly similar pairs (correlation > 0.60) found.

	Random model letter frequencies (from non-redundant database):
	A 0.281 C 0.222 G 0.229 T 0.267 


SECTION I: HIGH-SCORING SEQUENCES

LinksSequence NameDescriptionE-valueLength
D A ?
ompa 0.00012 105
D A ?
deop2 0.00014 105
D A ?
malt 0.00026 105
D A ?
lac 0.0003 105
D A ?
ara 0.00036 105
D A ?
trn9cat 0.0012 105
D A ?
gale 0.0016 105
D A ?
malk 0.002 105
D A ?
tnaa 0.0073 105
D A ?
ilv 0.0092 105
D A ?
male 0.011 105
D A ?
pbr322 0.018 105
D A ?
uxu1 0.02 105
D A ?
crp 0.027 105
D A ?
cya 0.041 105
D A ?
bglr1 0.048 105
D A ?
tdc 0.087 105
D A ?
ce1cg 0.11 105


SECTION II: MOTIF DIAGRAMS


LinksNameExpect   Motifs
S A ?
ompa 0.00012

+1
-3
S A ?
deop2 0.00014

-1
+3
-2
S A ?
malt 0.00026

+1
+2
S A ?
lac 0.0003

-1
+2
S A ?
ara 0.00036

+2
-1
-2
S A ?
trn9cat 0.0012

+3
+2
S A ?
gale 0.0016

+2
+1
-2
S A ?
malk 0.002

+3
+1
S A ?
tnaa 0.0073

+1
S A ?
ilv 0.0092

-2
S A ?
male 0.011

-1
+2
S A ?
pbr322 0.018

-1
S A ?
uxu1 0.02

+1
+3
S A ?
crp 0.027

-1
S A ?
cya 0.041

-1
S A ?
bglr1 0.048

-1
S A ?
tdc 0.087

+1
S A ?
ce1cg 0.11

+1
SCALE
| | | | |
1 25 50 75 100


SECTION III: ANNOTATED SEQUENCES


ompa
S D ?


LENGTH = 105 COMBINED P-VALUE = 6.84e-06 E-VALUE = 0.00012
DIAGRAM: 51-[+1]-27-[-3]-1
                                                        [+1]
                                                        2.9e-06
                                                        GTGACCCGGTTCACA
                                                         +++++ ++++++++
1    GCTGACAAAAAAGATTAAACATACCTTATACAAGACTTTTTTTTCATATGCCTGACGGAGTTCACACTTGTAAGT

                       [-3]
                       1.1e-05
                       CCTTCCATCAC
                       +++++++++++
76   TTTCAACTACGTTGTAGACTTTACATCGCC



deop2
S D ?


LENGTH = 105 COMBINED P-VALUE = 7.99e-06 E-VALUE = 0.00014
DIAGRAM: 9-[-1]-6-[+3]-19-[-2]-34
              [-1]                 [+3]                          [-2]
              1.2e-05              1.1e-05                       5.9e-05
              TGTGAACCGGGTCAC      GTGATGGAAGG                   TTTGTTATGCG
              + +++++++++++ +      +++++++++++                    ++++ +++++
1    AGTGAATTATTTGAACCAGATCGCATTACAGTGATGCAAACTTGTAAGTAGATTTCCTTAATTGTGATGTGTATC



malt
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.47e-05 E-VALUE = 0.00026
DIAGRAM: 44-[+1]-6-[+2]-29
                                                 [+1]                 [+2]
                                                 1.5e-05              5.8e-06
                                                 GTGACCCGGTTCACA      CGCATAACAA
                                                 +++++ ++++ ++ +      ++++++++++
1    GATCAGCGTCGTTTTAGGTGAGTTGTTAATAAAGATTTGGAATTGTGACACAGTGCAAATTCAGACACATAAAAA

     
     
     A
     +
76   AACGTCATCGCTTGCATTAGAAAGGTTTCT



lac
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.68e-05 E-VALUE = 0.0003
DIAGRAM: 11-[-1]-63-[+2]-5
                [-1]
                2.1e-06
                TGTGAACCGGGTCAC
                ++++++ +++ ++++
1    AACGCAATTAATGTGAGTTAGCTCACTCATTAGGCACCCCAGGCTTTACACTTTATGCTTCCGGCTCGTATGTTG

                   [+2]
                   1.4e-05
                   CGCATAACAAA
                   ++ +++++++
76   TGTGGAATTGTGAGCGGATAACAATTTCAC



ara
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.00e-05 E-VALUE = 0.00036
DIAGRAM: 8-[+2]-38-[-1]-2-[-2]-20
             [+2]                                             [-1]             [
             3.0e-06                                          3.6e-06          8
             CGCATAACAAA                                      TGTGAACCGGGTCAC  T
             +++ +++++++                                      + ++ ++ +++++++  +
1    GACAAAAACGCGTAACAAAAGTGTCTATAATCACGGCAGAAAAGTCCACATTGATTATTTGCACGGCGTCACACT

     -2]
     .9e-05
     TTGTTATGCG
     +++ +++++
76   TTGCTATGCCATAGCATTTTTATCCATAAG



trn9cat
S D ?


LENGTH = 105 COMBINED P-VALUE = 6.45e-05 E-VALUE = 0.0012
DIAGRAM: 2-[+3]-6-[+2]-75
       [+3]             [+2]
       8.2e-06          3.7e-05
       GTGATGGAAGG      CGCATAACAAA
       +++++++++++      ++++ ++ +++
1    CTGTGACGGAAGATCACTTCGCAGAATAAATAAATCCTGGTGTCCCTGTTGATACCGGGAAGCCCTGGGCCAACT



gale
S D ?


LENGTH = 105 COMBINED P-VALUE = 8.87e-05 E-VALUE = 0.0016
DIAGRAM: 1-[+2]-42-[+1]-2-[-2]-23
      [+2]                                                 [+1]             [-2]
      2.0e-06                                              7.1e-05          1.7e
      CGCATAACAAA                                          GTGACCCGGTTCACA  TTTG
      +++++++++++                                          ++ ++ + ++++ ++  ++++
1    GCGCATAAAAAACGGCTAAATTCTTGTGTAAACGATTCCACTAATTTATTCCATGTCACACTTTTCGCATCTTTG

     
     -05
     TTATGCG
     ++++++
76   TTATGCTATGGTTATTTCATACCATAAGCC



malk
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.12e-04 E-VALUE = 0.002
DIAGRAM: 47-[+3]-6-[+1]-26
                                                    [+3]             [+1]
                                                    7.5e-05          6.8e-06
                                                    GTGATGGAAGG      GTGACCCGGTT
                                                    ++ ++++++++      +++++++ +++
1    GGAGGAGGCGGGAGGATGAGAACACGGCTTCTGTGAACTAAACCGAGGTCATGTAAGGAATTTCGTGATGTTGCT

     
     
     CACA
       ++
76   TGCAAAAATCGTGGCGATTTTATGTGCGCA



tnaa
S D ?


LENGTH = 105 COMBINED P-VALUE = 4.07e-04 E-VALUE = 0.0073
DIAGRAM: 74-[+1]-16
                                                                               [
                                                                               5
                                                                               G
                                                                               +
1    TTTTTTAAACATTAAAATTCTTACGTAATTTATAATCTTTAAAAAAAGCATTTAATATTGCTCCCCGAACGATTG

     +1]
     .0e-06
     TGACCCGGTTCACA
     ++++ ++ ++++++
76   TGATTCGATTCACATTTAAACAATTTCAGA



ilv
S D ?


LENGTH = 105 COMBINED P-VALUE = 5.12e-04 E-VALUE = 0.0092
DIAGRAM: 15-[-2]-79
                    [-2]
                    9.5e-06
                    TTTGTTATGCG
                    ++++++++ ++
1    GCTCCGGCGGGGTTTTTTGTTATCTGCAATTCAGTACAAAACGTGATCAACCCCTCAATTTTCCCTTTGCTGAAA



male
S D ?


LENGTH = 105 COMBINED P-VALUE = 6.03e-04 E-VALUE = 0.011
DIAGRAM: 16-[-1]-48-[+2]-15
                     [-1]
                     1.9e-05
                     TGTGAACCGGGTCAC
                     +++ + + +++++++
1    ACATTACCGCCAATTCTGTAACAGAGATCACACAAAGCGACGGTGGGGCGTAGGGGCAAGGAGGATGGAAAGAGG

         [+2]
         8.9e-05
         CGCATAACAAA
         ++ +++++ ++
76   TTGCCGTATAAAGAAACTAGAGTCCGTTTA



pbr322
S D ?


LENGTH = 105 COMBINED P-VALUE = 9.89e-04 E-VALUE = 0.018
DIAGRAM: 55-[-1]-35
                                                            [-1]
                                                            6.8e-06
                                                            TGTGAACCGGGTCAC
                                                            ++++++++++  +++
1    CTGGCTTAACTATGCGGCATCAGAGCAGATTGTACTGAGAGTGCACCATATGCGGTGTGAAATACCGCACAGATG



uxu1
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.11e-03 E-VALUE = 0.02
DIAGRAM: 20-[+1]-59-[+3]
                         [+1]
                         1.9e-05
                         GTGACCCGGTTCACA
                         +++++++++++ ++
1    CCCATGAGAGTGAAATTGTTGTGATGTGGTTAACCCAATTAGAATTCGGGATTGACATGTCTTACCAAAAGGTAG

                        [+3]
                        5.8e-05
                        GTGATGGAAGG
                         ++++++++++
76   AACTTATACGCCATCTCATCCGATGCAAGC



crp
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.47e-03 E-VALUE = 0.027
DIAGRAM: 65-[-1]-25
                                                                      [-1]
                                                                      1.6e-05
                                                                      TGTGAACCGG
                                                                      ++  ++  ++
1    CACAAAGCGAAAGCTATGCTAAAACAGTCAGGATGCTACAGTAATACATTGATGTACTGCATGTATGCAAAGGAC

     
     
     GTCAC
     +++++
76   GTCACATTACCGTGCAGTACAGTTGATAGC



cya
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.27e-03 E-VALUE = 0.041
DIAGRAM: 52-[-1]-38
                                                         [-1]
                                                         6.2e-06
                                                         TGTGAACCGGGTCAC
                                                         +++ ++++ ++++++
1    ACGGTGCTACACTTGTATGTAGCGCATCTTTCTTTACGGTCAATCAGCAAGGTGTTAAATTGATCACGTTTTAGA



bglr1
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.69e-03 E-VALUE = 0.048
DIAGRAM: 78-[-1]-12

        [-1]
        1.2e-05
        TGTGAACCGGGTCAC
        +++++++  +++++
76   AACTGTGAGCATGGTCATATTTTTATCAAT



tdc
S D ?


LENGTH = 105 COMBINED P-VALUE = 4.83e-03 E-VALUE = 0.087
DIAGRAM: 81-[+1]-9

           [+1]
           2.3e-05
           GTGACCCGGTTCACA
           ++++   +++ ++++
76   TAATTTGTGAGTGGTCGCACATATCCTGTT



ce1cg
S D ?


LENGTH = 105 COMBINED P-VALUE = 5.86e-03 E-VALUE = 0.11
DIAGRAM: 64-[+1]-26
                                                                     [+1]
                                                                     1.3e-05
                                                                     GTGACCCGGTT
                                                                      +++++  +++
1    TAATGTTTGTGCTGGTTTTTGTGGCATCGGGCGAGAATAGCGCGTGGTGTGAAAGACTGTTTTTTTGATCGTTTT

     
     
     CACA
     ++++
76   CACAAAAATGGAAGTCCACAGTCTTGACAG


Debugging Information



CPU: nbcr2
Time 0.080000 secs.

mast meme.crp0.oops.4.sunsparcsolaris.html -stdout


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E
Links to Entrez database at NCBI
S
Links to sequence scores (section I)
D
Links to motif diagrams (section II)
A
Links to sequence/motif annotated alignments (section III)
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